Investigation on the analytical application of cationic Gemini surfactant 12‐4‐12 and its interaction with DNA

The quantitative determination of nucleic acids is of great importance in fundamental research and clinical diagnosis. In this work, the interaction between DNA and cationic Gemini surfactant 12‐4‐12, which changes the conformation of DNA, was investigated by UV‐vis absorption, FT‐IR spectra and steady‐state fluorescence techniques. A hydrophobic pyrene probe was used to investigate the microenvironment change and calculate the critical micelle concentration (CMC) of Gemini surfactant 12‐4‐12 (0.69 mmol/L), which is close to the value obtained from the conductivity method (0.79 mmol/L). A new detection assay for DNA is proposed with Gemini surfactant 12‐4‐12, using the resonance light‐scattering (RLS) technique. The formation of DNA–12‐4‐12 complex resulted in enhanced RLS signals at 368 nm, which is proportional to DNA concentration in the range 0.304–5.32 mg/L, with a detection limit of 35 µg/L. Most coexisting substances do not interfere in the detection and four synthetic samples were analyzed satisfactorily. Copyright © 2011 John Wiley & Sons, Ltd.     

The determination of deoxyribonucleic acids with triadimenol based on the enhancement of resonance light scattering

For the first time, triadimenol was used to determine nucleic acid (DNA) using the resonance light scattering (RLS) technique. The RLS of triadimenol was greatly enhanced by DNA in the range of pH 1.6 to approximately 1.9. A resonance light-scattering peak at 310 nm was found, and the enhanced intensity of RLS at this wavelength was proportional to the concentration of DNA. The linear range of the calibration curve was 0 to approximately 9 microg/ml with the detection limit of 24 ng ml(-1). The mechanism studies of the system indicated that the enhanced RLS is due to the aggregation of triadimenol on DNA. The nucleic acids in synthetic samples and in rice seedling extraction were analyzed with satisfactory results. Compared with other methods, this method is convenient, rapid, inexpensive and simple.     

Study of the interaction of hexa-amine cobalt (III) ion with DNA by a resonance light scattering technique and its analytical application.

The effect of hexa-amine cobalt cations on the DNA condensation in aqueous solution was investigated by resonance light scattering (RLS). When the relative concentration of hexa-amine cobalt (III) cations to DNA is in the appropriate range, the cations will induce DNA condensation and aggregation, which results in a strong RLS spectrum characterized by a peak at 290.0 nm. The RLS technique is a powerful tool for monitoring DNA condensation and, under optimal conditions, the enhanced RLS intensity at 290.0 nm was proportional to the concentration of DNA in the range 0.01-6.0 microg/mL. Based on this, a sensitive and convenient analysis method for the microdetermination of DNA was established. The detection limit (3 s) of calf thymus DNA by the proposed method is 1.9 ng/mL and few substances interfere in the DNA determination.     

The Determination of Deoxyribonucleic Acids with Triadimenol Based on the Enhancement of Resonance Light Scattering

For the first time, triadimenol was used to determine nucleic acid (DNA) using the resonance light scattering (RLS) technique. The RLS of triadimenol was greatly enhanced by DNA in the range of pH 1.6 ～ 1.9. A resonance light‐scattering peak at 310nm was found, and the enhanced intensity of RLS at this wavelength was proportional to the concentration of DNA. The linear range of the calibration curve was 0 ～ 9 µg/ml with the detection limit of 24 ng ml^? 1. The mechanism studies of the system indicated that the enhanced RLS is due to the aggregation of triadimenol on DNA. The nucleic acids in synthetic samples and in rice seedling extraction were analyzed with satisfactory results. Compared with other methods, this method is convenient, rapid, inexpensive and simple.     

Assay for the quantification of intact/fragmented genomic DNA

This study shows that the accuracy of the quantification of genomic DNA by the commonly used Hoechst- and PicoGreen-based assays is drastically affected by its degree of fragmentation. Specifically, it was shown that these assays underestimate by 70% the concentration of double-stranded DNA (dsDNA) with sizes less than 23 kb. On the other hand, DNA sizes greater and less than approximately 23 kb are commonly characterized as intact and fragmented genomic DNA, respectively, by the agarose electrophoresis DNA smearing assay and are evaluated only qualitatively by this assay. The need for accurate quantification of fragmented and total genomic DNA, combined with the lack of specific, reliable, and simple quantitative methods, prompted us to develop a Hoechst/PicoGreen-based fluorescent assay that quantifies both types of DNA. This assay addresses these problems, and in its Hoechst and PicoGreen version it accurately quantifies dsDNA as being either intact (>or=23 kb) or fragmented (<23 kb) in concentrations as low as 3 ng ml-1 or 5 pg ml-1 with Hoechst or PicoGreen, respectively, as well as the individual fractions of intact/fragmented DNA existing in any proportions in a total DNA sample in concentrations as low as 10 ng ml-1 or 15 pg ml-1 with Hoechst or PicoGreen, respectively. Because the assay discriminates total genomic DNA in the two size ranges (>or=23 and <23 kb) and quantitates them, it is proposed as the quantitative replacement of the agarose gel electrophoresis genomic DNA smearing assay.     

Bursal anti-steroidogenic peptide (BASP): modulation of mitogen-stimulated bursal-lymphocyte DNA synthesis

The present study examined the effects of bursal anti-steroidogenic peptide (BASP) on mitogen-induced DNA synthesis in bursa-derived B-lymphocytes in short-term culture. Partially purified extracts of chicken bursa of Fabricius tissue, containing BASP, significantly (P < 0.05) reduced DNA synthesis in bursal-lymphocytes exposed to increasing concentrations of phorbol 12,13-dibutyrate (PDB). Following these initial observations, BASP, further purified from bursal extracts using sequential rpHPLC fractionation, was observed to reduce (P < 0.05) both B-lymphocyte PDB-stimulated DNA synthesis and ovarian granulosa cell progesterone biosynthesis with bioactivity observed at similar retention times in each assay, suggesting that each bioactivity may be due to the same or similar molecules. A similar BASP-enriched fraction was not effective in altering basal levels of DNA synthesis in chick embryonic kidney cells. Subsequently, BASP was further purified by several sequential chromatographic methods including: C-18 rpHPLC (preparative rpHPLC followed by a semi-preparative rpHPLC column), cation exchange chromatography, molecular sieve HPLC chromatography, and SDS-PAGE. Biologically active material was observed at approximately 29 or 34 kDa. Protein concentration was determined and bioactivity was evaluated. Anti-proliferative effects of this partially purified BASP on bursal-lymphocytes was observed at concentrations as low as 1.6 micrograms ml-1, with complete suppression of mitogen-stimulated DNA synthesis observed at approximately 25 micrograms ml-1. This partially purified BASP was also efficacious for attenuation of ovarian granulosa cell progesterone biosynthesis at concentrations as low as 0.4 microgram ml-1, with complete suppression of gonadotrophin-stimulated progesterone biosynthesis observed at approximately 0.8 microgram ml-1. While BASP is efficacious for attenuation of both granulosa cell steroidogenesis and bursal-lymphocyte proliferation, these data suggest that BASP is much more potent with regard to anti-steroidogenic activity.     

Binding of the Mn(III) complex of meso-tetrakis (4-N-methyl-pyridiniumyl) porphyrin to DNA. Effect of ionic strength

Interactions of the water-soluble Mn(III) complex of meso-tetrakis (4-N-methyl-pyridiniumyl) porphyrin (Mn(III)TMPyP) with DNA in aqueous solutions at low (0.01 M) and high (0.2 M) ionic strengths have been studied by optical absorption, resonance light scattering (RLS) and 1H NMR spectroscopies. Optical absorption and RLS measurements have demonstrated that in DNA solutions at low ionic strength the Mn(III)TMPyP form aggregates, which are decomposed at DNA excess. At high ionic strength the aggregation was not observed. We explain this effect by assuming that upon increase in ionic strength, Mn(III) TMPyP dislocates from the DNA sites, which produces better conditions for the porphyrin aggregation, to sites where the aggregation is hindered. The 1H NMR data demonstrated that the aggregation observed at low ionic strength reduces the paramagnetism of Mn(III)TMPyP. This phenomenon was not observed at the high ionic strength in the absence of aggregation.     

Study on the Interaction Between Nucleic Acids and Imidacloprid and Its Application

The determination of imidacloprid with DNA via a resonance light scattering (RLS) technique was developed. The RLS of DNA was remarkably quenched after adding imidacloprid in aqueous medium of pH 2.10. An RLS peak at 311 nm was found, and the quenched intensity of RLS at this wavelength was proportional to the concentration of imidacloprid. The linear range of the calibration curve was approximately 0.02–2 μg/mL with the detection limit (S/N = 3) of 0.02 ng/mL. The imidacloprid in river water, cucumbers, and apple samples was determined. The recovery rates were in the range of 91.9% to 95.20%, 97.2% to 111.3%, and 94.5% to 114.8%, respectively. The mechanism of the reaction between imidacloprid and DNA is also discussed.     

Ribonucleic acid from the higher plant Matthiola incana. Molecular weight measurements and DNA-RNA hybridisation studies.

The percentage of DNA from the crucifer Matthiola incana coding for different types of RNA was measured by filter saturation hybridisation experiments using RNA labelled in vivo. In addition, the melting curves of the various DNA - RNA hybrids formed and the buoyant densities of the DNA sequences complementary to different types of RNA were measured. 1. The RNA preparations used were 25, 18, and 5 S rRNA and 4 S RNA, purified by gel electrophoresis, and poly(A)-containing RNA purified by oligo-(dT)-cellulose chromatography. The molecular weights of the 25 S and 18 S rRNAs, calculated from the mobility in formamide-acrylamide gels relative to Escherichia coli RNA, are 1.25 - 10(6) and 0.64 - 10(6). The rRNA precursor has a molecular weight of approx. 2.1 - 10(6) and the average molecular weight of the poly(A)-containing RNA from both cotyledons and roots is 4 - 10(5). 2. The percentage of the genome, calculated on the basis of double-stranded DNA, coding for these RNAs and the estimated number of genes per haploid DNA amount are approximately 0.46% and 1100 for 25 S plus 18 S rRNA, 0.032% and 3600 for 5 S rRNA and 0.072% and 13 000 for 4 S RNA. In filter hybridisation experiments very little hybridisation of poly(A)-containing RNA was found. A rapidly-hybridising component is attributed to small amounts of contaminating rRNA. 3. M. incana DNA has a main band at 1.697 g - ml-1 in CsCl and a satellite constituting approximately 3% of the DNA, at 1.708 g - ml-1 - 25 and 18 S rRNA hybridise to DNA with a buoyant density of 1.701--2 g - ml-1. The buoyant density of 5 S DNA is slightly less at 1.700--1 g - ml-1. 4. S RNA hybridises to at least two separate regions, one within the main-band DNA and a second lighter component. None of the RNAs tested hybridised to the satellite DNA. The Tm of the DNA - RNA hybrids in 1 X SSC is 89 degrees C for 25 S rRNA, 85 degrees C for 5 S rRNA and 82 degrees C for 4 S RNA. 4. 5 and 4 S RNA preparations contain fragments which hybridise to sequences complementary to high-molecular-weight rRNA. This spurious hybridisation can be eliminated by competition with unlabelled high-molecular-weight RNA.     

Inducible processes in DNA replication and repair after gamma, UV-irradiation and action of some chemicals in mammalian cells

Restored DNA synthesis in mammalian gamma-, UV-irradiation and action of FdUrd was shown to be resistant to gamma- and UV-irradiation or heating. This correlates well with changes in chromatin structure and perhaps depends on the modification of the latter. For studying possible inducible characteristics of restored process of DNA synthesis the irradiated cells were incubated with cycloheximide (1 or 10 micrograms ml-1) or actinomycin D (0.05 ug ml-1). It was shown that in the presence of cycloheximide or actinomycin D restoration of DNA synthesis did not occur. A high rate of postreplicative DNA repair in UV-irradiated HeLa cells occurs after the previous action of FdUrd or UV-irradiation. Under these conditions daughter DNA strands have few gaps. Two-dimensional gel electrophoresis of proteins from the cells with resistant DNA synthesis demonstrates higher level some of these and lower one of the other proteins.     

Acidic fibroblast growth factor (HBGF-1) stimulates DNA synthesis in primary rat hepatocyte cultures.

Acidic fibroblast growth factor (aFGF) stimulated DNA synthesis in primary rat hepatocyte cultures in a dose-dependent manner with maximal effect at 10-50 ng ml-1. This activity was dependent on the presence of heparin at a concentration of 10-50 micrograms.ml-1. Insulin interacted synergistically with aFGF, as it did with epidermal growth factor (EGF). The response to aFGF was only 50% that found with EGF. The disparity was not due to different kinetics of DNA synthesis, since the peak response for both growth factors occurred at 36-72 hr after plating of the hepatocytes. The potential relevance of this novel hepatocyte mitogen to normal and pathological liver growth is discussed.     

Novobiocin-resistance sequences from the novobiocin-producing strain Streptomyces niveus

Two distinct DNA sequences expressing novobiocin resistance in Streptomyces lividans were cloned from the novobiocin-producing species Streptomyces niveus. Clone pGL101 (5kb) conferred resistance to 50 micrograms ml-1 novobiocin, whereas clones pGL102 and pGL103, which carry the same 6.5kb insert but in opposite orientations, expressed resistance to 150 micrograms ml-1. The cloned inserts from pGL101 and pGL103 failed to hybridize with each other or with the cloned novobiocin-resistant gyrB sequence from Streptomyces sphaeroides. Both probes hybridized strongly with DNA from the novobiocin-producing species S. niveus and S. sphaeroides but no hybridization (pGL103) or very weak hybridization (pGL101) was detected with DNA from the non-producing species S. lividans, Streptomyces griseus and Streptomyces antibioticus. S. niveus contains at least three novobiocin-resistance determinants with the pGL101 and pGL103 cloned sequences specific for novobiocin-producing strains of Streptomyces.     

基于[Ru(phen)2(bpip)] 2+-DNA相互作用的共振光散射增强建立纳克级DNA的测定方法

通过研究钌多吡啶类配合物［Ru(phen)2(bpip)］2+与DNA相互作用的共振光散射等光谱,我们发现［Ru(phen)2(bpip)］²⁺与DNA相互作用的方式包括插入作用和静电作用模式.同时基于［Ru(phen)2(bpip)］²⁺ DNA体系增强的共振光散射现象,建立了一种简单、快速的测定纳克级核酸的新方法.实验结果表明体系在373 nm处共振光散射强度的增强与DNA的浓度呈线性关系.线性范围为0.025～1.250 mg/L,线性公式为△I_RLS=283.14C+2.26 (mg/L),相关系数为0.9983,DNA的检出限为5.7 ng/mL. 应用到实际样品的分析中,结果令人满意.     

Stable isotope probing with 15N achieved by disentangling the effects of genome G+C content and isotope enrichment on DNA density

Stable isotope probing (SIP) of nucleic acids is a powerful tool that can identify the functional capabilities of noncultivated microorganisms as they occur in microbial communities. While it has been suggested previously that nucleic acid SIP can be performed with 15N, nearly all applications of this technique to date have used 13C. Successful application of SIP using 15N-DNA (15N-DNA-SIP) has been limited, because the maximum shift in buoyant density that can be achieved in CsCl gradients is approximately 0.016 g ml-1 for 15N-labeled DNA, relative to 0.036 g ml-1 for 13C-labeled DNA. In contrast, variation in genome G+C content between microorganisms can result in DNA samples that vary in buoyant density by as much as 0.05 g ml-1. Thus, natural variation in genome G+C content in complex communities prevents the effective separation of 15N-labeled DNA from unlabeled DNA. We describe a method which disentangles the effects of isotope incorporation and genome G+C content on DNA buoyant density and makes it possible to isolate 15N-labeled DNA from heterogeneous mixtures of DNA. This method relies on recovery of "heavy" DNA from primary CsCl density gradients followed by purification of 15N-labeled DNA from unlabeled high-G+C-content DNA in secondary CsCl density gradients containing bis-benzimide. This technique, by providing a means to enhance separation of isotopically labeled DNA from unlabeled DNA, makes it possible to use 15N-labeled compounds effectively in DNA-SIP experiments and also will be effective for removing unlabeled DNA from isotopically labeled DNA in 13C-DNA-SIP applications.     

A conspicuous adaptability to antibiotics in the Escherichia coli mutator strain, dnaQ49

By repeating the cycle of mutagenesis and selection, the Escherichia coli dnaQ49 mutator acquired high level resistance to ampicillin (30,000 micrograms ml-1), streptomycin (26,000 micrograms ml-1) and ofloxacin (3000 micrograms ml-1). Under the strong pressure of ofloxacin, dnaQ49 also followed the history of mutations in the gyrase and topoisomerase i.v. genes previously observed in clinical isolates of quinolone-resistant E. coli. The results of these in vitro experiments suggest that naturally existing mutators may participate in the rapid acquisition of resistance to various antibiotics in patients. A possible mechanism for the occurrence of this adaptability is discussed with special reference to the property of mutagenesis accompanying DNA replication.     

Probable synchronous replication of mitochondrial DNA in cultures of chick embryo fibroblasts

Cultures of chick embryo fibroblasts were synchronized using a procedure previously described. The profile of incorporation of tritiated thymidine showed a main peak of nuclear DNA replication followed by a small peak between 18 and 24 hr after induction of the cell division, and representing 10 to 25% of the main peak. To identify this small peak, cells were treated with ethidium bromide(EB) chloramphenicol (CAP) or 9-B-D arabinofuranosyl adenine (Ara-A). When EB (1 mug ml-1) and CAP(25mug ml-1) were added at time of induction of mitosis (T0) or 14 hr later (T14) the small peak was suppressed whereas the main peak was not decreased. On the contrary, only the main peak was suppressed when Ara-A was added at T0 or T14. These results suggest that the peak might correspond to the synchronous replication of the mitochondrial DNA during the G2 and M phases of the cell division cycle.     

Highly efficient genetic transformation of Bacillus subtilis attached to sand grains

Genetic transformation at the solid/liquid interface was studied using Bacillus subtilis 1G20 (trpC2) with a flow-through system of columns filled with chemically pure sea sand. Studies were done at 23 degrees C. In one type of experiment, competent cultures were incubated with sand-adsorbed DNA, and in another, competent cultures were exposed to sand and then incubated with dissolved DNA for transformation. Of the applied cells, around 10% were retained in columns filled with DNA-loaded sand and around 1% in columns with pure sand. Reversible attachment of some of the cells to surfaces of sand grains could be demonstrated. The overall transformation frequencies obtained were 25- to 50-fold higher than in a standard liquid culture procedure. In this standard procedure, transformation was sensitive to DNAase I concentrations above 50 ng ml-1, whereas in sand columns it was resistant to DNAase I concentrations up to 1 microgram ml-1. Quantification of transformants eluting from columns indicated that sand-attached cells detach at some point after DNA binding or uptake.     

The effects of four mycotoxins on the mitogen stimulated proliferation of bovine peripheral blood mononuclear cells in vitro

The effects of four mycotoxins, T-2 toxin, deoxynivalenol (DON), ochratoxin A (OTA) and fumonisin B1 (FB1) on the response of bovine peripheral blood mononuclear cells (PBM) in vitro to the mitogens concanavalin A (Con A), phytohaemagglutinin A (PHA) and pokeweed mitogen (PWM) were assayed after 4 days' incubation using 3H-thymidine uptake and the MTT bioassay. The concentrations of mycotoxin required to reduce the proliferative response of PBM by 50% for Con A, PHA and PWM as measured by 3H-thymidine incorporation was for T-2 toxin 0.30, 0.40 and 0.18 ng ml-1; for DON 0.07, 0.09 and 0.04 μg ml-1; for OTA 0.10, 0.20 and 0.15 μg ml- 1, and for FB1 35, 18 and 11 μg ml-1M by 50% for Con A, PHA and PWM as measured by the MTT bioassay were for T-2 toxin 2.0, 2.0 and 1.0 mg ml-1; for DON 0.70, 0.50 and 0.50 μg ml-1; OTA 1.5, 1,5 and 1.5 μg ml- 1; and FB1 >50, >50 and 20 μg ml-1 respectively. Further cytotoxicity assays including the LDH bioassay and Trypan blue exclusion were performed only on Con A-stimulated PBM cells after 72 h incubation. With the LDH-bioassay the 50% inhibition levels were T-2 toxin 0.3 ng ml-1, DON 0.4 μg ml- 1, OTA 1.4 μg ml-1 and FB1 3.5 μg ml-1; for Trypan blue uptake the 50% inhibition levels were T-2 toxin 5 ng ml-1, DON 2.3 μg ml-1 and OTA 4 μg ml-1 respectively. This revised version was published online in June 2006 with corrections to the Cover Date.     

Determination of nucleic acids based on the quenching effect on resonance light scattering of the Y(III)-1,6-bi(1'-phenyl-3'-methyl-5'-pyrazolone-4'-)hexane-dione system.

Nucleic acids can quench resonance light scattering (RLS) intensity of the Y(III)-1,6-bi(1'-phenyl-3'-methyl-5'-pyrazolone-4'-)hexane-dione(BPMPHD) complex in the pH range 5.0-5.8. Under optimal conditions, there are linear relationships between the quenching of RLS and the concentration of nucleic acids in the range 6.3 x 10(-8)-2.1 x 10(-5) g/mL for fish sperm DNA (fsDNA), 1.2 x 10(-8)-5.0 x 10(-5) g/mL for calf thymus DNA (ctDNA) and 6.0 x 10(-8)-2.0 x 10(-5) g/mL for yeast RNA (yRNA). The detection limits (3 s) of fsDNA, ctDNA and yRNA are 0.7 ng/mL, 3.8 ng/mL and 4.2 ng/mL, respectively.     

Effect of different densities of live and dead Chlorella vulgaris on the population growth of rotifers Brachionus calyciflorus and Brachionus patulus (Rotifera)

In order to maintain rotifer populations during periods of low algal production, it is necessary to offer alternate diets, some of which include forms of preserved algae. The present work is based on the effect of live and dead Chlorella vulgaris on the population growth of Brachionus calyciflorus and Brachionus patulus. The experimental design consisted of three algal levels (0.5 x 10(6), 1.5 x 10(6) and 4.5 x 10(6) cells ml-1) offered in three forms (living, frozen and heat-killed). The maximal population density values for B. calyciflorus ranged from 55 +/- 1 ind. ml-1 (at 0.5 x 10(6) cells ml-1) to 471 +/- 72 ind. ml-1 (at 4.5 x 10(6) cells ml-1) with live Chlorella, but was much lower (6 +/- 1 to 26 +/- 6 ind. ml-1) with frozen or heat-killed alga under comparable food levels. However, the maximum population density of B. patulus under live or or heat-killed Chlorella was similar at comparable algal levels but when offered frozen algae it was four times less. The highest mean peak population density was 1,277 +/- 83 ind. ml-1 under 4.5 x 10(6) cells ml-1. The rate of population increase for B. calyciflorus varied from 0.50 to 0.79 using live Chlorella, but under comparable conditions, this range was lower (0.21 to 0.31) for B. patulus. Results have been discussed in light of possible application for aquaculture.